PKscan: a program to identify H-type RNA pseudoknots in any RNA sequence with unlimited length

A computer program written in C++ has been developed which can detect all potential H-type RNA pseudoknots within any given RNA sequence. There is no limit on the length of the input sequence. A validation run of the program using the full-length (8173 nt) genomic mRNA of simian retrovirus type-1 (S...

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Detalles Bibliográficos
Autores principales: Huang, Xiaolan, Du, Zhihua, Cheng, Jie, Cheng, Qiang
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Biomedical Informatics 2013
Materias:
Hypothesis
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3705612/
https://www.ncbi.nlm.nih.gov/pubmed/23847396
http://dx.doi.org/10.6026/97320630009440
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author Huang, Xiaolan
Du, Zhihua
Cheng, Jie
Cheng, Qiang
author_facet Huang, Xiaolan
Du, Zhihua
Cheng, Jie
Cheng, Qiang
author_sort Huang, Xiaolan
collection PubMed
description A computer program written in C++ has been developed which can detect all potential H-type RNA pseudoknots within any given RNA sequence. There is no limit on the length of the input sequence. A validation run of the program using the full-length (8173 nt) genomic mRNA of simian retrovirus type-1 (SRV-1) identifies the established -1 frameshift stimulating pseudokont at the gagpro junction as the most stable pseudoknot within the genomic mRNA.
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spelling pubmed-37056122013-07-11 PKscan: a program to identify H-type RNA pseudoknots in any RNA sequence with unlimited length Huang, Xiaolan Du, Zhihua Cheng, Jie Cheng, Qiang Bioinformation Hypothesis A computer program written in C++ has been developed which can detect all potential H-type RNA pseudoknots within any given RNA sequence. There is no limit on the length of the input sequence. A validation run of the program using the full-length (8173 nt) genomic mRNA of simian retrovirus type-1 (SRV-1) identifies the established -1 frameshift stimulating pseudokont at the gagpro junction as the most stable pseudoknot within the genomic mRNA. Biomedical Informatics 2013-05-25 /pmc/articles/PMC3705612/ /pubmed/23847396 http://dx.doi.org/10.6026/97320630009440 Text en © 2013 Biomedical Informatics This is an open-access article, which permits unrestricted use, distribution, and reproduction in any medium, for non-commercial purposes, provided the original author and source are credited.
spellingShingle Hypothesis
Huang, Xiaolan
Du, Zhihua
Cheng, Jie
Cheng, Qiang
PKscan: a program to identify H-type RNA pseudoknots in any RNA sequence with unlimited length
title PKscan: a program to identify H-type RNA pseudoknots in any RNA sequence with unlimited length
title_full PKscan: a program to identify H-type RNA pseudoknots in any RNA sequence with unlimited length
title_fullStr PKscan: a program to identify H-type RNA pseudoknots in any RNA sequence with unlimited length
title_full_unstemmed PKscan: a program to identify H-type RNA pseudoknots in any RNA sequence with unlimited length
title_short PKscan: a program to identify H-type RNA pseudoknots in any RNA sequence with unlimited length
title_sort pkscan: a program to identify h-type rna pseudoknots in any rna sequence with unlimited length
topic Hypothesis
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3705612/
https://www.ncbi.nlm.nih.gov/pubmed/23847396
http://dx.doi.org/10.6026/97320630009440
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AT chengjie pkscanaprogramtoidentifyhtypernapseudoknotsinanyrnasequencewithunlimitedlength
AT chengqiang pkscanaprogramtoidentifyhtypernapseudoknotsinanyrnasequencewithunlimitedlength

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